Nick Goldman - Publications

European Bioinformatics Institute, Hinxton, England, United Kingdom 

103 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Hodcroft EB, De Maio N, Lanfear R, MacCannell DR, Minh BQ, Schmidt HA, Stamatakis A, Goldman N, Dessimoz C. Want to track pandemic variants faster? Fix the bioinformatics bottleneck. Nature. 591: 30-33. PMID 33649511 DOI: 10.1038/d41586-021-00525-x  0.56
2021 Kalkauskas A, Perron U, Sun Y, Goldman N, Baele G, Guindon S, De Maio N. Sampling bias and model choice in continuous phylogeography: Getting lost on a random walk. Plos Computational Biology. 17: e1008561. PMID 33406072 DOI: 10.1371/journal.pcbi.1008561  0.48
2020 Turakhia Y, De Maio N, Thornlow B, Gozashti L, Lanfear R, Walker CR, Hinrichs AS, Fernandes JD, Borges R, Slodkowicz G, Weilguny L, Haussler D, Goldman N, Corbett-Detig R. Stability of SARS-CoV-2 phylogenies. Plos Genetics. 16: e1009175. PMID 33206635 DOI: 10.1371/journal.pgen.1009175  0.96
2020 Weber CC, Perron U, Casey D, Yang Z, Goldman N. Ambiguity Coding Allows Accurate Inference of Evolutionary Parameters from Alignments in an Aggregated State-Space. Systematic Biology. PMID 32353118 DOI: 10.1093/Sysbio/Syaa036  1
2020 Slodkowicz G, Goldman N. Integrated structural and evolutionary analysis reveals common mechanisms underlying adaptive evolution in mammals. Proceedings of the National Academy of Sciences of the United States of America. 117: 5977-5986. PMID 32123117 DOI: 10.1073/Pnas.1916786117  0.96
2019 Perron U, Kozlov AM, Stamatakis A, Goldman N, Moal IH. Modelling structural constraints on protein evolution via side-chain conformational states. Molecular Biology and Evolution. PMID 31114882 DOI: 10.1093/Molbev/Msz122  0.48
2018 Vialle RA, Tamuri AU, Goldman N. Alignment modulates ancestral sequence reconstruction accuracy. Molecular Biology and Evolution. PMID 29618097 DOI: 10.1093/Molbev/Msy055  0.92
2017 Klopfstein S, Massingham T, Goldman N. More on the Best Evolutionary Rate for Phylogenetic Analysis. Systematic Biology. PMID 28595363 DOI: 10.1093/Sysbio/Syx051  1
2017 Löytynoja A, Goldman N. Short template switch events explain mutation clusters in the human genome. Genome Research. PMID 28385709 DOI: 10.1101/Gr.214973.116  1
2016 Gori K, Suchan T, Alvarez N, Goldman N, Dessimoz C. Clustering genes of common evolutionary history. Molecular Biology and Evolution. PMID 26893301 DOI: 10.1093/Molbev/Msw038  1
2016 Schwarz RF, Tamuri AU, Kultys M, King J, Godwin J, Florescu AM, Schultz J, Goldman N. ALVIS: interactive non-aggregative visualization and explorative analysis of multiple sequence alignments. Nucleic Acids Research. PMID 26819408 DOI: 10.1093/Nar/Gkw022  1
2015 Truszkowski J, Goldman N. Maximum likelihood phylogenetic inference is consistent on multiple sequence alignments, with or without gaps. Systematic Biology. PMID 26615177 DOI: 10.1093/Sysbio/Syv089  1
2015 Tan G, Muffato M, Ledergerber C, Herrero J, Goldman N, Gil M, Dessimoz C. Current methods for automated filtering of multiple sequence alignments frequently worsen single-gene phylogenetic inference. Systematic Biology. PMID 26031838 DOI: 10.1093/Sysbio/Syv033  1
2015 Lowe R, Slodkowicz G, Goldman N, Rakyan VK. The human blood DNA methylome displays a highly distinctive profile compared with other somatic tissues. Epigenetics : Official Journal of the Dna Methylation Society. 10: 274-81. PMID 25634226 DOI: 10.1080/15592294.2014.1003744  1
2015 Tan G, Gil M, Löytynoja AP, Goldman N, Dessimoz C. Simple chained guide trees give poorer multiple sequence alignments than inferred trees in simulation and phylogenetic benchmarks. Proceedings of the National Academy of Sciences of the United States of America. 112: E99-100. PMID 25564672 DOI: 10.1073/Pnas.1417526112  1
2014 Chen L, Kostadima M, Martens JH, Canu G, Garcia SP, Turro E, Downes K, Macaulay IC, Bielczyk-Maczynska E, Coe S, Farrow S, Poudel P, Burden F, Jansen SB, Astle WJ, ... ... Goldman N, et al. Transcriptional diversity during lineage commitment of human blood progenitors. Science (New York, N.Y.). 345: 1251033. PMID 25258084 DOI: 10.1126/Science.1251033  1
2014 Behjati S, Huch M, van Boxtel R, Karthaus W, Wedge DC, Tamuri AU, Martincorena I, Petljak M, Alexandrov LB, Gundem G, Tarpey PS, Roerink S, Blokker J, Maddison M, Mudie L, ... ... Goldman N, et al. Genome sequencing of normal cells reveals developmental lineages and mutational processes. Nature. 513: 422-5. PMID 25043003 DOI: 10.1038/Nature13448  1
2014 Parks SL, Goldman N. Maximum likelihood inference of small trees in the presence of long branches. Systematic Biology. 63: 798-811. PMID 24996414 DOI: 10.1093/Sysbio/Syu044  1
2014 Schwarz RF, Trinh A, Sipos B, Brenton JD, Goldman N, Markowetz F. Phylogenetic quantification of intra-tumour heterogeneity. Plos Computational Biology. 10: e1003535. PMID 24743184 DOI: 10.1371/Journal.Pcbi.1003535  1
2014 Tamuri AU, Goldman N, dos Reis M. A penalized-likelihood method to estimate the distribution of selection coefficients from phylogenetic data. Genetics. 197: 257-71. PMID 24532780 DOI: 10.1534/Genetics.114.162263  1
2014 Iantorno S, Gori K, Goldman N, Gil M, Dessimoz C. Who watches the watchmen? An appraisal of benchmarks for multiple sequence alignment. Methods in Molecular Biology (Clifton, N.J.). 1079: 59-73. PMID 24170395 DOI: 10.1007/978-1-62703-646-7_4  1
2013 de Beer TA, Laskowski RA, Parks SL, Sipos B, Goldman N, Thornton JM. Amino acid changes in disease-associated variants differ radically from variants observed in the 1000 genomes project dataset. Plos Computational Biology. 9: e1003382. PMID 24348229 DOI: 10.1371/Journal.Pcbi.1003382  1
2013 Engström PG, Steijger T, Sipos B, Grant GR, Kahles A, Rätsch G, Goldman N, Hubbard TJ, Harrow J, Guigó R, Bertone P. Systematic evaluation of spliced alignment programs for RNA-seq data. Nature Methods. 10: 1185-91. PMID 24185836 DOI: 10.1038/Nmeth.2722  1
2013 Cvejic A, Haer-Wigman L, Stephens JC, Kostadima M, Smethurst PA, Frontini M, van den Akker E, Bertone P, Bielczyk-MaczyÅ„ska E, Farrow S, Fehrmann RS, Gray A, de Haas M, Haver VG, Jordan G, ... ... Goldman N, et al. SMIM1 underlies the Vel blood group and influences red blood cell traits. Nature Genetics. 45: 542-5. PMID 23563608 DOI: 10.1038/Ng.2603  1
2013 Goldman N, Bertone P, Chen S, Dessimoz C, LeProust EM, Sipos B, Birney E. Towards practical, high-capacity, low-maintenance information storage in synthesized DNA. Nature. 494: 77-80. PMID 23354052 DOI: 10.1038/Nature11875  1
2012 Sipos B, Massingham T, Stütz AM, Goldman N. An improved protocol for sequencing of repetitive genomic regions and structural variations using mutagenesis and next generation sequencing. Plos One. 7: e43359. PMID 22912860 DOI: 10.1371/Journal.Pone.0043359  1
2012 Massingham T, Goldman N. Error-correcting properties of the SOLiD Exact Call Chemistry. Bmc Bioinformatics. 13: 145. PMID 22726842 DOI: 10.1186/1471-2105-13-145  1
2012 Löytynoja A, Vilella AJ, Goldman N. Accurate extension of multiple sequence alignments using a phylogeny-aware graph algorithm. Bioinformatics (Oxford, England). 28: 1684-91. PMID 22531217 DOI: 10.1093/Bioinformatics/Bts198  1
2012 Zhai W, Nielsen R, Goldman N, Yang Z. Looking for Darwin in genomic sequences--validity and success of statistical methods. Molecular Biology and Evolution. 29: 2889-93. PMID 22490825 DOI: 10.1093/Molbev/Mss104  1
2012 Schroder K, Irvine KM, Taylor MS, Bokil NJ, Le Cao KA, Masterman KA, Labzin LI, Semple CA, Kapetanovic R, Fairbairn L, Akalin A, Faulkner GJ, Baillie JK, Gongora M, Daub CO, ... ... Goldman N, et al. Conservation and divergence in Toll-like receptor 4-regulated gene expression in primary human versus mouse macrophages. Proceedings of the National Academy of Sciences of the United States of America. 109: E944-53. PMID 22451944 DOI: 10.1073/Pnas.1110156109  1
2012 Scally A, Dutheil JY, Hillier LW, Jordan GE, Goodhead I, Herrero J, Hobolth A, Lappalainen T, Mailund T, Marques-Bonet T, McCarthy S, Montgomery SH, Schwalie PC, Tang YA, Ward MC, ... ... Goldman N, et al. Insights into hominid evolution from the gorilla genome sequence. Nature. 483: 169-75. PMID 22398555 DOI: 10.1038/Nature10842  1
2012 Massingham T, Goldman N. All Your Base: a fast and accurate probabilistic approach to base calling. Genome Biology. 13: R13. PMID 22377270 DOI: 10.1186/Gb-2012-13-2-R13  1
2012 Jordan G, Goldman N. The effects of alignment error and alignment filtering on the sitewise detection of positive selection. Molecular Biology and Evolution. 29: 1125-39. PMID 22049066 DOI: 10.1093/Molbev/Msr272  1
2012 Goldman N, Yang Z. Foreword Codon Evolution: Mechanisms and Models 1
2011 Lindblad-Toh K, Garber M, Zuk O, Lin MF, Parker BJ, Washietl S, Kheradpour P, Ernst J, Jordan G, Mauceli E, Ward LD, Lowe CB, Holloway AK, Clamp M, Gnerre S, ... ... Goldman N, et al. A high-resolution map of human evolutionary constraint using 29 mammals. Nature. 478: 476-82. PMID 21993624 DOI: 10.1038/Nature10530  1
2011 Hess J, Goldman N. Addressing inter-gene heterogeneity in maximum likelihood phylogenomic analysis: yeasts revisited. Plos One. 6: e22783. PMID 21850235 DOI: 10.1371/Journal.Pone.0022783  1
2011 Kosiol C, Goldman N. Markovian and non-Markovian protein sequence evolution: aggregated Markov process models. Journal of Molecular Biology. 411: 910-23. PMID 21718704 DOI: 10.1016/J.Jmb.2011.06.005  1
2011 Sipos B, Massingham T, Jordan GE, Goldman N. PhyloSim - Monte Carlo simulation of sequence evolution in the R statistical computing environment. Bmc Bioinformatics. 12: 104. PMID 21504561 DOI: 10.1186/1471-2105-12-104  1
2011 Washietl S, Findeiss S, Müller SA, Kalkhof S, von Bergen M, Hofacker IL, Stadler PF, Goldman N. RNAcode: robust discrimination of coding and noncoding regions in comparative sequence data. Rna (New York, N.Y.). 17: 578-94. PMID 21357752 DOI: 10.1261/Rna.2536111  1
2011 Lakner C, Holder MT, Goldman N, Naylor GJ. What's in a likelihood? Simple models of protein evolution and the contribution of structurally viable reconstructions to the likelihood. Systematic Biology. 60: 161-74. PMID 21233085 DOI: 10.1093/Sysbio/Syq088  1
2010 Löytynoja A, Goldman N. webPRANK: a phylogeny-aware multiple sequence aligner with interactive alignment browser. Bmc Bioinformatics. 11: 579. PMID 21110866 DOI: 10.1186/1471-2105-11-579  1
2009 Chor B, Horn D, Goldman N, Levy Y, Massingham T. Genomic DNA k-mer spectra: models and modalities. Genome Biology. 10: R108. PMID 19814784 DOI: 10.1186/Gb-2009-10-10-R108  1
2009 Yang Z, Nielsen R, Goldman N. In defense of statistical methods for detecting positive selection. Proceedings of the National Academy of Sciences of the United States of America. 106: E95; author reply E9. PMID 19805241 DOI: 10.1073/Pnas.0904550106  1
2009 Löytynoja A, Goldman N. Evolution. Uniting alignments and trees. Science (New York, N.Y.). 324: 1528-9. PMID 19541988 DOI: 10.1126/Science.1175949  1
2008 Taylor MS, Massingham T, Hayashizaki Y, Carninci P, Goldman N, Semple CA. Rapidly evolving human promoter regions. Nature Genetics. 40: 1262-3; author reply. PMID 18957975 DOI: 10.1038/Ng1108-1262  1
2008 Washietl S, Machné R, Goldman N. Evolutionary footprints of nucleosome positions in yeast. Trends in Genetics : Tig. 24: 583-7. PMID 18951646 DOI: 10.1016/J.Tig.2008.09.003  1
2008 Löytynoja A, Goldman N. A model of evolution and structure for multiple sequence alignment. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 363: 3913-9. PMID 18852103 DOI: 10.1098/Rstb.2008.0170  1
2008 Goldman N, Yang Z. Introduction. Statistical and computational challenges in molecular phylogenetics and evolution. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 363: 3889-92. PMID 18852095 DOI: 10.1098/Rstb.2008.0182  1
2008 Löytynoja A, Goldman N. Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis. Science (New York, N.Y.). 320: 1632-5. PMID 18566285 DOI: 10.1126/Science.1158395  1
2008 Tress ML, Wesselink JJ, Frankish A, López G, Goldman N, Löytynoja A, Massingham T, Pardi F, Whelan S, Harrow J, Valencia A. Determination and validation of principal gene products. Bioinformatics (Oxford, England). 24: 11-7. PMID 18006548 DOI: 10.1093/Bioinformatics/Btm547  1
2008 Thorne JL, Goldman N. Probabilistic Models for the Study of Protein Evolution Handbook of Statistical Genetics: Third Edition. 1: 439-459. DOI: 10.1002/9780470061619.ch14  1
2007 Massingham T, Goldman N. Statistics of the log-det estimator. Molecular Biology and Evolution. 24: 2277-85. PMID 17703055 DOI: 10.1093/Molbev/Msm160  1
2007 Geuten K, Massingham T, Darius P, Smets E, Goldman N. Experimental design criteria in phylogenetics: where to add taxa. Systematic Biology. 56: 609-22. PMID 17654365 DOI: 10.1080/10635150701499563  1
2007 Margulies EH, Cooper GM, Asimenos G, Thomas DJ, Dewey CN, Siepel A, Birney E, Keefe D, Schwartz AS, Hou M, Taylor J, Nikolaev S, Montoya-Burgos JI, Löytynoja A, Whelan S, ... ... Goldman N, et al. Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. Genome Research. 17: 760-74. PMID 17567995 DOI: 10.1101/Gr.6034307  1
2007 Pardi F, Goldman N. Resource-aware taxon selection for maximizing phylogenetic diversity. Systematic Biology. 56: 431-44. PMID 17558965 DOI: 10.1080/10635150701411279  1
2007 Kosiol C, Holmes I, Goldman N. An empirical codon model for protein sequence evolution. Molecular Biology and Evolution. 24: 1464-79. PMID 17400572 DOI: 10.1093/Molbev/Msm064  1
2007 Bofkin L, Goldman N. Variation in evolutionary processes at different codon positions. Molecular Biology and Evolution. 24: 513-21. PMID 17119011 DOI: 10.1093/Molbev/Msl178  1
2006 Klosterman PS, Uzilov AV, Bendaña YR, Bradley RK, Chao S, Kosiol C, Goldman N, Holmes I. XRate: a fast prototyping, training and annotation tool for phylo-grammars. Bmc Bioinformatics. 7: 428. PMID 17018148 DOI: 10.1186/1471-2105-7-428  1
2006 Whelan S, de Bakker PI, Quevillon E, Rodriguez N, Goldman N. PANDIT: an evolution-centric database of protein and associated nucleotide domains with inferred trees. Nucleic Acids Research. 34: D327-31. PMID 16381879 DOI: 10.1093/Nar/Gkj087  1
2005 Pardi F, Goldman N. Species choice for comparative genomics: being greedy works. Plos Genetics. 1: e71. PMID 16327885 DOI: 10.1371/Journal.Pgen.0010071  1
2005 Löytynoja A, Goldman N. An algorithm for progressive multiple alignment of sequences with insertions. Proceedings of the National Academy of Sciences of the United States of America. 102: 10557-62. PMID 16000407 DOI: 10.1073/Pnas.0409137102  1
2005 Massingham T, Goldman N. Detecting amino acid sites under positive selection and purifying selection. Genetics. 169: 1753-62. PMID 15654091 DOI: 10.1534/Genetics.104.032144  1
2005 Kosiol C, Goldman N. Different versions of the Dayhoff rate matrix. Molecular Biology and Evolution. 22: 193-9. PMID 15483331 DOI: 10.1093/Molbev/Msi005  1
2005 Pardi F, Goldman N. Species choice for comparative genomics: Being greedy works Plos Genetics. 1: 0672-0675. DOI: 10.1371 /journal.pgen.0010071  1
2004 Wong WS, Yang Z, Goldman N, Nielsen R. Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites. Genetics. 168: 1041-51. PMID 15514074 DOI: 10.1534/Genetics.104.031153  1
2004 Whelan S, Goldman N. Estimating the frequency of events that cause multiple-nucleotide changes. Genetics. 167: 2027-43. PMID 15342538 DOI: 10.1534/Genetics.103.023226  1
2004 Kosiol C, Goldman N, Buttimore NH. A new criterion and method for amino acid classification. Journal of Theoretical Biology. 228: 97-106. PMID 15064085 DOI: 10.1016/J.Jtbi.2003.12.010  1
2004 Liò P, Goldman N. Phylogenomics and bioinformatics of SARS-CoV. Trends in Microbiology. 12: 106-11. PMID 15058277 DOI: 10.1016/J.Tim.2004.01.005  1
2003 Whelan S, de Bakker PI, Goldman N. Pandit: a database of protein and associated nucleotide domains with inferred trees. Bioinformatics (Oxford, England). 19: 1556-63. PMID 12912837 DOI: 10.1093/Bioinformatics/Btg188  1
2003 Robinson DM, Jones DT, Kishino H, Goldman N, Thorne JL. Protein evolution with dependence among codons due to tertiary structure. Molecular Biology and Evolution. 20: 1692-704. PMID 12885968 DOI: 10.1093/Molbev/Msg184  1
2003 Hardison RC, Roskin KM, Yang S, Diekhans M, Kent WJ, Weber R, Elnitski L, Li J, O'Connor M, Kolbe D, Schwartz S, Furey TS, Whelan S, Goldman N, Smit A, et al. Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution. Genome Research. 13: 13-26. PMID 12529302 DOI: 10.1101/Gr.844103  1
2002 Waterston RH, Lindblad-Toh K, Birney E, Rogers J, Abril JF, Agarwal P, Agarwala R, Ainscough R, Alexandersson M, An P, Antonarakis SE, Attwood J, Baertsch R, Bailey J, ... ... Goldman N, et al. Initial sequencing and comparative analysis of the mouse genome. Nature. 420: 520-62. PMID 12466850 DOI: 10.1038/Nature01262  1
2002 Goldman N, Whelan S. A novel use of equilibrium frequencies in models of sequence evolution. Molecular Biology and Evolution. 19: 1821-31. PMID 12411592 DOI: 10.1093/Oxfordjournals.Molbev.A004007  1
2002 Liò P, Goldman N. Modeling mitochondrial protein evolution using structural information. Journal of Molecular Evolution. 54: 519-29. PMID 11956690 DOI: 10.1007/S00239001-0052-7  1
2001 Whelan S, Liò P, Goldman N. Molecular phylogenetics: state-of-the-art methods for looking into the past. Trends in Genetics : Tig. 17: 262-72. PMID 11335036 DOI: 10.1016/S0168-9525(01)02272-7  1
2001 Whelan S, Goldman N. A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Molecular Biology and Evolution. 18: 691-9. PMID 11319253 DOI: 10.1093/Oxfordjournals.Molbev.A003851  1
2000 Goldman N, Anderson JP, Rodrigo AG. Likelihood-based tests of topologies in phylogenetics Systematic Biology. 49: 652-670. PMID 12116432 DOI: 10.1080/106351500750049752  1
2000 Massingham T, Goldman N. EDIBLE: experimental design and information calculations in phylogenetics. Bioinformatics (Oxford, England). 16: 294-5. PMID 10869025 DOI: 10.1093/Bioinformatics/16.3.294  1
2000 Goldman N, Whelan S. Statistical tests of gamma-distributed rate heterogeneity in models of sequence evolution in phylogenetics. Molecular Biology and Evolution. 17: 975-8. PMID 10833204 DOI: 10.1093/Oxfordjournals.Molbev.A026378  1
2000 Yang Z, Nielsen R, Goldman N, Pedersen AMK. Codon-substitution models for heterogeneous selection pressure at amino acid sites Genetics. 155: 431-449. PMID 10790415  1
2000 Hagelberg E, Goldman N, Lio P, Whelan S, Schiefenhovel W, Clegg JB, Bowden DK. Evidence for mitochondrial DNA recombination in a human population of island Melanesia: Correction Proceedings of the Royal Society B: Biological Sciences. 267: 1595-1596. DOI: 10.1098/Rspb.2000.1183  1
1999 Liò P, Goldman N. Using protein structural information in evolutionary inference: transmembrane proteins. Molecular Biology and Evolution. 16: 1696-710. PMID 10605112 DOI: 10.1093/Oxfordjournals.Molbev.A026083  1
1999 Hagelberg E, Goldman N, Lió P, Whelan S, Schiefenhövel W, Clegg JB, Bowden DK. Evidence for mitochondrial DNA recombination in a human population of island Melanesia. Proceedings. Biological Sciences / the Royal Society. 266: 485-92. PMID 10189712 DOI: 10.1098/Rspb.1999.0663  1
1999 Pollock DD, Taylor WR, Goldman N. Coevolving protein residues: maximum likelihood identification and relationship to structure. Journal of Molecular Biology. 287: 187-98. PMID 10074416 DOI: 10.1006/Jmbi.1998.2601  1
1999 Whelan S, Goldman N. Distributions of statistics used for the comparison of models of sequence evolution in phylogenetics Molecular Biology and Evolution. 16: 1292-1299. DOI: 10.1093/Oxfordjournals.Molbev.A026219  1
1998 Liò P, Goldman N, Thorne JL, Jones3 DT. PASSML: combining evolutionary inference and protein secondary structure prediction. Bioinformatics (Oxford, England). 14: 726-33. PMID 9789098 DOI: 10.1093/Bioinformatics/14.8.726  1
1998 Goldman N. Phylogenetic information and experimental design in molecular systematics Proceedings of the Royal Society B: Biological Sciences. 265: 1779-1786. PMID 9787470 DOI: 10.1098/Rspb.1998.0502  1
1998 Goldman N, Thorne JL, Jones DT. Assessing the impact of secondary structure and solvent accessibility on protein evolution. Genetics. 149: 445-58. PMID 9584116  1
1998 Liò P, Goldman N. Review: Models of molecular evolution and phylogeny Genome Research. 8: 1233-1244. DOI: 10.1101/gr.8.12.1233  1
1998 Goldman N. Effects of sequence alignment procedures on estimates of phylogeny Bioessays. 20: 287-290. DOI: 10.1002/(Sici)1521-1878(199804)20:4<287::Aid-Bies4>3.0.Co;2-N  1
1996 Goldman N, Thorne JL, Jones DT. Using evolutionary trees in protein secondary structure prediction and other comparative sequence analyses. Journal of Molecular Biology. 263: 196-208. PMID 8913301 DOI: 10.1006/Jmbi.1996.0569  1
1996 Thorne JL, Goldman N, Jones DT. Combining protein evolution and secondary structure. Molecular Biology and Evolution. 13: 666-73. PMID 8676741 DOI: 10.1093/Oxfordjournals.Molbev.A025627  1
1995 Breuer J, Douglas NW, Goldman N, Daniels RS. Human immunodeficiency virus type 2 (HIV-2) env gene analysis: prediction of glycoprotein epitopes important for heterotypic neutralization and evidence for three genotype clusters within the HIV-2a subtype. The Journal of General Virology. 76: 333-45. PMID 7531216 DOI: 10.1099/0022-1317-76-2-333  1
1995 Yang Z, Goldman N, Friday A. Maximum likelihood trees from DNA sequences: A peculiar statistical estimation problem Systematic Biology. 44: 384-399. DOI: 10.1093/Sysbio/44.3.384  1
1994 Yang Z, Goldman N, Friday A. Comparison of models for nucleotide substitution used in maximum- likelihood phylogenetic estimation Molecular Biology and Evolution. 11: 316-324. PMID 8170371 DOI: 10.1093/Oxfordjournals.Molbev.A040112  1
1994 Yang Z, Goldman N. Evaluation and extension of Markov process models for the evolution of DNA Acta Genetica Sinica. 21: 17-23. PMID 8003346  1
1994 Goldman N, Yang Z. A codon-based model of nucleotide substitution for protein-coding DNA sequences Molecular Biology and Evolution. 11: 725-736. PMID 7968486 DOI: 10.1093/Oxfordjournals.Molbev.A040153  1
1994 Goldman N. Variance to Mean Ratio, R(t), for Poisson Processes on Phylogenetic Trees Molecular Phylogenetics and Evolution. 3: 230-239. PMID 7820287 DOI: 10.1006/Mpev.1994.1025  1
1994 Gardner MJ, Goldman N, Barnett P, Moore PW, Rangachari K, Strath M, Whyte A, Williamson DH, Wilson RJ. Phylogenetic analysis of the rpoB gene from the plastid-like DNA of Plasmodium falciparum. Molecular and Biochemical Parasitology. 66: 221-31. PMID 7808472 DOI: 10.1016/0166-6851(94)90149-X  1
1993 Goldman N. Nucleotide, dinucleotide and trinucleotide frequencies explain patterns observed in chaos game representations of DNA sequences Nucleic Acids Research. 21: 2487-2491. PMID 8506142 DOI: 10.1093/Nar/21.10.2487  1
1993 Goldman N. Further results on error minimization in the genetic code Journal of Molecular Evolution. 37: 662-664. PMID 8114119 DOI: 10.1007/Bf00182752  1
1993 Goldman N. Statistical tests of models of DNA substitution Journal of Molecular Evolution. 36: 182-198. PMID 7679448 DOI: 10.1007/Bf00166252  1
1993 Goldman N. Simple diagnostic statistical tests of models for DNA substitution Journal of Molecular Evolution. 37: 661. DOI: 10.1007/Bf00182751  1
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